Sequence
atgc intronic sequence ATGC exonic sequence...agaaagataaaactggcatgccaatgtaattaaaataaataaataaaaaaaaaacccttaaatcacagtgacatgataatttttgtgtttcctggttcagGGCCAGGATGCTCATCGGTAGCATACGGGGCATCAGAGGAAATTGGGCCGTTTCGTATAAACAAAACTGGCTCTTCTCTATATCTCAACAAATATGCATG
Basic information
species | Glycine max |
transcript | GLYMA02G36600.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA02G36600.1 (Glycine max), 3'ss of exon 1
lower sequence: AT4G30610.1 (Arabidopsis thaliana), 3'ss of exon 1
-----agaaagataaaactg-gcatgccaatgtaa-ttaaaataaataaataaaaaaaaaacccttaaatcacagtgacatgataatttttgtgtttcctggttcagGGCCAGGATGCTCATCGGTAGCATACGGGGCATCAGAGGAAATTGGGCCGTTTCGTATAAACAAAACTGGCTCTTCTCTATATCTCAACAAATATGCATG
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ttataacatatataggattttgtattcatttgtaaattattataagtaaataaataatgg---cattgatgaaactattttatttactcaaaaaaat----atacagGACCGGGCTGCTCGTCGATTGCTTATGGAGCTTCAGAGGAAATTGGACCGTTTCGTATCAACAAAACCGGTTCCAATCTCTATCTCAACAAGTTCGCTTG
upper sequence: GLYMA02G36600.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv11s0037g00320.t01 (Vitis vinifera), 3'ss of exon 1
agaaagataaaactggcatgccaatgtaattaaaataaataaataaaaaaaaaac--ccttaaatcacagtga--catgataatttttg-tgtttcctggttcagGGCCAGGATGCTCATCGGTAGCATACGGGGCATCAGAGGAAATTGGGCCGTTTCGTATAAACAAAACTGGCTCTTCTCTATATCTCAACAAATATGCATG
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--ctacttagttttttcatcagtaagaaggttggattgtgacttacagaccactctacactaaattatcatgtttcctggtaaaaaaaaatggtatctg---cagGACCGGGTTGTTCATCAGTGGCATATGGAGCATCAGAGGAAATTGGGCCATTTCGGCTTTACAGAACTGGTTCATCTCTTTATCTCAACAAGTATTCATGMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|298169715|gb|HO021075.1|HO021075EST: ATCCCCCACTTCCCCGCAGAATAAACCTGTTGTTCTCTGGCTCAACGGAG GGCCAGGATGCTCATCGGTAGCATACGGGGCATCAGAGGAAATTGGGCCGT
genomic: ATCCCCCACTTCCCCGCAGAATAAACCTCTTGTTCTCTGGCTCAACGGAGgttagtctat ... cctggttcagGGCCAGGATGCTCATCGGTAGCATACGGGGCATCAGAGGAAATTGGGCCGT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaaaaaaaacccttaaatcacagtgacatgataatttttgtgtttcctggttcagGGCCAGGATGCTCATCGGTAGCATACGGGGCATCAGAGGAAATTGGGCCGTTTCGTATAAACAAAACTGGCTCTTCTCTATATCTCAACAAATATGCATG
tttttgtgtttcct CT-rich tract
ataatttttgtgttt TA-rich tract
Putative cis-regulatory sequences
atgc | intron | ATGC | exonic elements by Pertea et al. |
ATGC | exon | atgc | putative intronic elements |
| | ATGC | putative exonic elements identified for retained introns |
10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
agaaagataaaactggcatgccaatgtaattaaaataaataaataaaaaaaaaacccttaaatcacagtgacatgataatttttgtgtttcctggttcagGGCCAGGATGCTCATCGGTAGCATACGGGGCATCAGAGGAAATTGGGCCGTTTCGTATAAACAAAACTGGCTCTTCTCTATATCTCAACAAATATGCATG
- - -gataaaac
- - - - - - - - catgcca
- - - - - - - - - - - - - - - -aaaataa
- - - - - - - - - - - - - - - - aaataaa
- - - - - - - - - - - - - - - - - - - - - - aaaaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - cccttaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgacatg